The aquatic systems of Kerch peninsula are unique groundwater manifestations situated on the area with a low technogenic pressure. Thereby these are very interesting object for the study of processes of the migration and accumulation of the geochemical markers (polycyclic aromatic hydrocarbons, PAHs) as the background areas. The study is devoted to the assessment of the processes on the geochemical barriers (GCB) – self-organizing components of geochemical systems, where the activation of physical and chemical processes takes place, leading to the transformation of atomic-molecular structures and associations of individual chemical elements under the action of active media. The intensity of nonequilibrium processes is estimated using the entropy increment ΔS, enthalpy ΔH, and Gibbs energy ΔG of the geochemical system. The specificity of a study is the involvement of the assessments of the processes with the participation of the living matter. This should allow to build a theoretical model of GCB from the point of view of synergistic processes and to evaluate the functional significance of GCB in relation to geochemical markers. The study allowed to receive the series of migration and accumulation of PAHs for all the components of the aquatic system. Applying the listed methods we give a quantitative assessment of the energy of migration and accumulation processes of PAHs. It allows to understand the dynamics of processes in the water – soil – plant system and to identify the optimal "indicator" objects, priority for environmental monitoring. The estimates of the PAHs migration capabilities clearly indicate a variety of structural connections between the components of the dissipative hydrogeochemical system formed by point sources-the outflows of groundwater. The diversity depends on the initial chemical composition of the waters and the impulsive nature of the outflows. The inclusion of "living matter" into the geochemical system model as a dissipative structure and active component significantly changes our understanding of nonequilibrium geochemical systems at all levels of their organization. © SGEM2018 All Rights Reserved.